Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 37 of 310
Found at i:10434167 original size:24 final size:24
Alignment explanation
Indices: 10434135--10434184 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
10434125 CGAAGTTCAA
10434135 CTTTATAAACATTGTCTTAGTTCT
1 CTTTATAAACATTGTCTTAGTTCT
*
10434159 CTTTATAAATATTGTCTTAGTTCT
1 CTTTATAAACATTGTCTTAGTTCT
10434183 CT
1 CT
10434185 ATCTTCCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (24 bp):
CTTTATAAACATTGTCTTAGTTCT
Found at i:10438979 original size:49 final size:49
Alignment explanation
Indices: 10438923--10440070 Score: 2109
Period size: 49 Copynumber: 23.6 Consensus size: 49
10438913 TATTTGAATA
10438923 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
10438972 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439019 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
10439068 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439115 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-G-GCCGATGTGATG
10439164 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439213 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439262 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439311 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439360 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439409 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439458 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439507 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439556 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439605 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439654 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439703 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439752 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439801 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439850 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439899 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
10439948 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
10439997 AATGTGAAAGTG--TATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
10440044 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
10440071 TCCCGAAGGG
Statistics
Matches: 1074, Mismatches: 17, Indels: 18
0.97 0.02 0.02
Matches are distributed among these distances:
47 159 0.15
48 1 0.00
49 891 0.83
50 1 0.00
51 22 0.02
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:10440290 original size:37 final size:37
Alignment explanation
Indices: 10440189--10440290 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
10440179 CCGAGCTCTA
*
10440189 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
10440226 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
10440263 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
10440291 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:10448815 original size:28 final size:28
Alignment explanation
Indices: 10448795--10448876 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
10448785 GGCACTCAGG
* *
10448795 GTACGAAATATTGAGAATGGCACTTAGT
1 GTACGAGATATTGAGAATGACACTTAGT
**
10448823 GCGCGAGATATTGAGAATGACACTTAGT
1 GTACGAGATATTGAGAATGACACTTAGT
*
10448851 GTATGAGATATTGAGAATGACACTTA
1 GTACGAGATATTGAGAATGACACTTA
10448877 ATGTGCAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (28 bp):
GTACGAGATATTGAGAATGACACTTAGT
Found at i:10448889 original size:28 final size:28
Alignment explanation
Indices: 10448798--10448889 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
10448788 ACTCAGGGTA
* *
10448798 CGAAATATTGAGAATGGCACTTAGTGCG
1 CGAAATATTGAGAATGACACTTAGTGTG
* *
10448826 CGAGATATTGAGAATGACACTTAGTGTA
1 CGAAATATTGAGAATGACACTTAGTGTG
* * *
10448854 TGAGATATTGAGAATGACACTTAATGTG
1 CGAAATATTGAGAATGACACTTAGTGTG
*
10448882 CAAAATAT
1 CGAAATAT
10448890 CGAATGATTC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (28 bp):
CGAAATATTGAGAATGACACTTAGTGTG
Found at i:10451191 original size:31 final size:32
Alignment explanation
Indices: 10451156--10451218 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
10451146 CTTGGCCTGA
*
10451156 CGGAAGCCGGAGC-CAGAGAACTCTCCTCCTT
1 CGGAAGCCGGAGCTCAGAGAACTCTCCCCCTT
*
10451187 CGGAAGCCGGAGCTCGGAGAACTCTCCCCCTT
1 CGGAAGCCGGAGCTCAGAGAACTCTCCCCCTT
10451219 TCTCCTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.21, C:0.37, G:0.27, T:0.16
Consensus pattern (32 bp):
CGGAAGCCGGAGCTCAGAGAACTCTCCCCCTT
Found at i:10451826 original size:55 final size:55
Alignment explanation
Indices: 10451758--10451885 Score: 145
Period size: 55 Copynumber: 2.3 Consensus size: 55
10451748 ATGAAAAATA
*
10451758 ATATATATTATTA-TATA-CATCTTTATAAATTTTGTTATATGTTATAT-TTTTATT
1 ATATATATTATTATTATATCATCTTTAT--ATTTTATTATATGTTATATATTTTATT
* * *
10451812 ATATATATTAATTATTCTATTATCTTTATATTTTATTATATGTTATATAATTTTTTT
1 ATATATATT-ATTATTATATCATCTTTATATTTTATTATATGTTATAT-ATTTTATT
10451869 ACTATATATATATTATT
1 A-TATATAT-TATTATT
10451886 TATTTTACTA
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
54 9 0.14
55 22 0.35
56 3 0.05
57 15 0.24
58 13 0.21
59 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (55 bp):
ATATATATTATTATTATATCATCTTTATATTTTATTATATGTTATATATTTTATT
Found at i:10451905 original size:25 final size:24
Alignment explanation
Indices: 10451840--10451906 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
10451830 ATTATCTTTA
* *
10451840 TATTTTATTATATGTTATATAATT
1 TATTTTACTATATTTTATATAATT
* *
10451864 T-TTTTACTATA-TATATATTATT
1 TATTTTACTATATTTTATATAATT
10451886 TATTTTACTATATTTTTATAT
1 TATTTTACTATA-TTTTATAT
10451907 GTAAAATTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 9 0.26
23 19 0.54
24 1 0.03
25 6 0.17
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (24 bp):
TATTTTACTATATTTTATATAATT
Found at i:10454921 original size:37 final size:37
Alignment explanation
Indices: 10454863--10454937 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
10454853 GCCTAGGAAA
*
10454863 TAGGAATCCAGAACCATTATCGAACCAAGCCGCAACC
1 TAGGAATCCAGAACCACTATCGAACCAAGCCGCAACC
* *
10454900 TAGGAATGCAGACCCACTATCGAACCAAGCCGCAACC
1 TAGGAATCCAGAACCACTATCGAACCAAGCCGCAACC
10454937 T
1 T
10454938 GTTTCGATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.33, G:0.17, T:0.13
Consensus pattern (37 bp):
TAGGAATCCAGAACCACTATCGAACCAAGCCGCAACC
Found at i:10461543 original size:44 final size:44
Alignment explanation
Indices: 10461492--10462495 Score: 1522
Period size: 44 Copynumber: 22.8 Consensus size: 44
10461482 TCACCGGTGA
10461492 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10461536 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10461580 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10461624 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10461668 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10461712 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10461756 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10461800 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10461844 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10461888 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10461932 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10461976 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10462020 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10462064 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10462108 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10462152 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10462196 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10462240 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10462284 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
10462328 TAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
10462372 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* ** *
10462416 CGGATTTGGCGTCTCTGTATTGTTTGAGAGTAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
10462460 CAGATTTGGCATCTCTGTATTGTTAGAGAGTAGATC
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATC
10462496 AAAATAACGA
Statistics
Matches: 859, Mismatches: 101, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 859 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
Found at i:10461628 original size:88 final size:88
Alignment explanation
Indices: 10461492--10462495 Score: 1864
Period size: 88 Copynumber: 11.4 Consensus size: 88
10461482 TCACCGGTGA
* * *
10461492 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10461557 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10461580 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10461645 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10461668 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10461733 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10461756 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10461821 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10461844 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10461909 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10461932 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10461997 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10462020 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10462085 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10462108 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10462173 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10462196 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10462261 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
10462284 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
10462349 GTCAAAGAGCAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
* * * **
10462372 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCGGATTTGGCGTCTCTGTATT
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
*** *
10462437 GTTTGAGAGTAGATCGAAGATAG
66 GTCAAAGAGCAGATCGAAGATAG
* * * *
10462460 CAGATTTGGCATCTCTGTATTGTTAGAGAGTAGATC
1 CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATC
10462496 AAAATAACGA
Statistics
Matches: 901, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 901 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (88 bp):
CAGATTTGGCATTTCTATATTGTCAGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATT
GTCAAAGAGCAGATCGAAGATAG
Found at i:10470577 original size:26 final size:28
Alignment explanation
Indices: 10470493--10470569 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
10470483 GCAATCAAAT
* *
10470493 ATGGCACTCATTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
** *
10470521 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
10470549 ATGGCACTTAGTGTACGAAAT
1 ATGGCACTTAGTGTACGAAAT
10470570 TTCAAATGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:10482055 original size:6 final size:6
Alignment explanation
Indices: 10482044--10482070 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10482034 GGTTTTGAGT
10482044 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
10482071 GTTTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:10487617 original size:27 final size:27
Alignment explanation
Indices: 10487587--10487774 Score: 209
Period size: 27 Copynumber: 7.0 Consensus size: 27
10487577 GTAGGAAAAT
10487587 CAGTCATTTTA-CCTCACAGGGGTATTA
1 CAGTCATTTTACCCT-ACAGGGGTATTA
*
10487614 CAGTCATTTTACCCTAAAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
* * * *
10487641 TAGTCATGTTACCCTACAGGGCTTTTA
1 CAGTCATTTTACCCTACAGGGGTATTA
* *
10487668 TAGTCATTTTACCCTACAGGGGTGTTA
1 CAGTCATTTTACCCTACAGGGGTATTA
* * * *
10487695 CAGTCATTTTACCTTATAAGGGTATTT
1 CAGTCATTTTACCCTACAGGGGTATTA
* *
10487722 CAGTCATTTTAACCTAC-GAGGGTATTT
1 CAGTCATTTTACCCTACAG-GGGTATTA
* *
10487749 CAATCATTTTACCCTATAGGGGTATT
1 CAGTCATTTTACCCTACAGGGGTATT
10487775 TTGGATATTA
Statistics
Matches: 136, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 132 0.97
28 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
CAGTCATTTTACCCTACAGGGGTATTA
Found at i:10487727 original size:81 final size:82
Alignment explanation
Indices: 10487588--10487774 Score: 235
Period size: 81 Copynumber: 2.3 Consensus size: 82
10487578 TAGGAAAATC
10487588 AGTCATTTTA-CCTCACAGGGGTATTACAGTCATTTTACCCTAAAGGGGTATTATAGTCATGTTA
1 AGTCATTTTACCCT-ACAGGGGTATTACAGTCATTTTACCCTAAAGGGGTATTATAGTCATGTTA
*
10487652 CCCTAC-AGGGCT-TTT-A
65 ACCTACGAGGG-TATTTCA
* * *
10487668 TAGTCATTTTACCCTACAGGGGTGTTACAGTCATTTTACCTTATAA-GGGTATT-TCAGTCATTT
1 -AGTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTA-AAGGGGTATTAT-AGTCATGT
10487731 TAACCTACGAGGGTATTTCA
63 TAACCTACGAGGGTATTTCA
*
10487751 A-TCATTTTACCCTATAGGGGTATT
1 AGTCATTTTACCCTACAGGGGTATT
10487775 TTGGATATTA
Statistics
Matches: 94, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
80 1 0.01
81 79 0.84
82 13 0.14
83 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (82 bp):
AGTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTAAAGGGGTATTATAGTCATGTTAA
CCTACGAGGGTATTTCA
Found at i:10491176 original size:13 final size:14
Alignment explanation
Indices: 10491158--10491187 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10491148 GCTCTAATGA
10491158 TTTGAACTGAA-CT
1 TTTGAACTGAATCT
10491171 TTTGAACTGAATCT
1 TTTGAACTGAATCT
10491185 TTT
1 TTT
10491188 TGAGTTAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (14 bp):
TTTGAACTGAATCT
Found at i:10494700 original size:205 final size:206
Alignment explanation
Indices: 10494130--10494890 Score: 1159
Period size: 206 Copynumber: 3.7 Consensus size: 206
10494120 AAATCTGCTT
* * * *
10494130 CTTCGATTTGTCCTCTGACAATACAGAGATGCCAAATCATCTTATATTTGCTTCAGCGAAAGCAC
1 CTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * * *
10494195 GCGAAAGCCAAATGAGCTATGTCTTCGATTTGCTCCTTGTAAGCACGAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * ** * * *
10494260 GGATCTGCTTCTGTTTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCAAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTATGTGTCTGCTCTCCGTCGAATATG
10494325 GAGATGCCAAA
196 GAGATGCCAAA
* * * *
10494336 CTTTGATTTATTCTCTGAAAATACAGAGATGCCAAATAATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
10494401 GTGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATTT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
10494465 TGGACCTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTATGTGTCTGCTCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTATGTGTCTGCTCTCCGTCGAATAT
*
10494530 GGAGACGCCAAA
195 GGAGATGCCAAA
* *
10494542 CTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTATATTTGCTTCATCGTAA-CAC
1 CTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
10494606 GTGAAAGCCAATTCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
10494671 GGATCTGCTTCAGTATAAACATCTGAAGGCCAAAT-TTGCTATGTGTCTGCTCTCCGTCGAATAT
131 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTT-CTATGTGTCTGCTCTCCGTCGAATAT
10494735 GGAGATGCCAAA
195 GGAGATGCCAAA
* *
10494747 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
10494812 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGTATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
10494877 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
10494891 CCAGATCTGC
Statistics
Matches: 505, Mismatches: 45, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
204 3 0.01
205 191 0.38
206 302 0.60
207 9 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTATGTGTCTGCTCTCCGTCGAATATG
GAGATGCCAAA
Found at i:10506152 original size:39 final size:40
Alignment explanation
Indices: 10506108--10506239 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
10506098 CCTTCAGGAT
* **
10506108 TTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGCAC
10506147 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGCAC
1 TTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGCAC
* * * **
10506187 TTAGCCCAGATATAGGAACTTGCACAAATGCCTTCGAAAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGCAC
10506227 TTAGCCCGGATAT
1 TTAGCCCGGATAT
10506240 CATCCGAATA
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.05
40 76 0.94
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGCAC
Found at i:10506376 original size:40 final size:40
Alignment explanation
Indices: 10506309--10506403 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
10506299 TAACTATGGG
* ** **
10506309 ACTTCGCCCAGATATAGTCACTAGCACAAATGCCTTCGGC
1 ACTTAGCCCAGATATAGGAACTAGCACAAATGCCTTCGAA
*
10506349 ACTTAGCCCAGATATAGGAACTTGCACAAATGCCTTCGAA
1 ACTTAGCCCAGATATAGGAACTAGCACAAATGCCTTCGAA
*
10506389 ACTTAGCCCGGATAT
1 ACTTAGCCCAGATAT
10506404 CATCCGAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (40 bp):
ACTTAGCCCAGATATAGGAACTAGCACAAATGCCTTCGAA
Found at i:10506426 original size:164 final size:164
Alignment explanation
Indices: 10506150--10506468 Score: 629
Period size: 164 Copynumber: 1.9 Consensus size: 164
10506140 TCGGGTCTTA
*
10506150 GCCCGGATATAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCAGATATAGGAACTTGCACAAA
1 GCCCAGATATAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCAGATATAGGAACTTGCACAAA
10506215 TGCCTTCGAAACTTAGCCCGGATATCATCCGAATAATCAAGCACATATATCAATGAATCATGACA
66 TGCCTTCGAAACTTAGCCCGGATATCATCCGAATAATCAAGCACATATATCAATGAATCATGACA
10506280 CATCTATATTTCATTTTCATAACTATGGGACTTC
131 CATCTATATTTCATTTTCATAACTATGGGACTTC
10506314 GCCCAGATATAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCAGATATAGGAACTTGCACAAA
1 GCCCAGATATAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCAGATATAGGAACTTGCACAAA
10506379 TGCCTTCGAAACTTAGCCCGGATATCATCCGAATAATCAAGCACATATATCAATGAATCATGACA
66 TGCCTTCGAAACTTAGCCCGGATATCATCCGAATAATCAAGCACATATATCAATGAATCATGACA
10506444 CATCTATATTTCATTTTCATAACTA
131 CATCTATATTTCATTTTCATAACTA
10506469 GAATTCAAAC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 154 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (164 bp):
GCCCAGATATAGTCACTAGCACAAATGCCTTCGGCACTTAGCCCAGATATAGGAACTTGCACAAA
TGCCTTCGAAACTTAGCCCGGATATCATCCGAATAATCAAGCACATATATCAATGAATCATGACA
CATCTATATTTCATTTTCATAACTATGGGACTTC
Found at i:10513923 original size:43 final size:43
Alignment explanation
Indices: 10513822--10514667 Score: 1637
Period size: 43 Copynumber: 19.7 Consensus size: 43
10513812 GGATATAGCA
* *
10513822 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAACT
10513865 A---GCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10513905 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10513948 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10513991 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514034 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514077 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514120 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514163 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514206 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514249 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514292 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514335 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514378 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514421 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514464 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514507 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514550 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514593 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
10514636 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
10514668 ATATCATCCG
Statistics
Matches: 797, Mismatches: 2, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
39 1 0.00
40 36 0.05
43 760 0.95
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.21
Consensus pattern (43 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
Found at i:10520312 original size:43 final size:43
Alignment explanation
Indices: 10520264--10520349 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
10520254 TCTTTGAGGA
*
10520264 TATAGAGGTTGTGGAACTTTGGCTTGGACTGAACAGCTCTTCC
1 TATAGAGGTTGTGGAACTTTGGCTTGGACTGAACAACTCTTCC
*
10520307 TATAGAGGTTGTGGAACTTTGGCTTGGACTGGACAACTCTTCC
1 TATAGAGGTTGTGGAACTTTGGCTTGGACTGAACAACTCTTCC
10520350 GAGGTAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (43 bp):
TATAGAGGTTGTGGAACTTTGGCTTGGACTGAACAACTCTTCC
Found at i:10524183 original size:27 final size:27
Alignment explanation
Indices: 10524142--10524195 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10524132 TGTCATGTGA
* *
10524142 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
10524169 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
10524196 GGTCGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:10524686 original size:49 final size:50
Alignment explanation
Indices: 10524441--10524687 Score: 275
Period size: 49 Copynumber: 5.0 Consensus size: 50
10524431 ATCTATTGTG
* *
10524441 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATAATT
* * *
10524491 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * * **
10524541 CGATCACGTGTGTAGTACTAAGTCCAGGCTTCTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
10524591 AGGTCACGTGTGTAGTACTAGGTGCAGGCTACTACGTGTACTAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* **
10524641 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA
10524688 CCTTGTCTAC
Statistics
Matches: 163, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
49 81 0.50
50 45 0.28
51 37 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:10527209 original size:40 final size:40
Alignment explanation
Indices: 10527165--10527240 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
10527155 TTAGTGCCAC
*
10527165 ATATAGCCAAAGCTAT-TCCAATTCGCACACTAAGTGTTTT
1 ATATAGCCAAAGCTATCTCCAA-TCACACACTAAGTGTTTT
** *
10527205 ATATAGCTGAAGCTATCTCGAATCACACACTAAGTG
1 ATATAGCCAAAGCTATCTCCAATCACACACTAAGTG
10527241 CCAAACATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (40 bp):
ATATAGCCAAAGCTATCTCCAATCACACACTAAGTGTTTT
Found at i:10530723 original size:43 final size:42
Alignment explanation
Indices: 10530662--10530764 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
10530652 CAATACTGAC
* * * * **
10530662 GTCCCGGACGTGGTCTTACATGTAATTCA-ATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACG-AAATCAGATA-CGATGCCAAT
10530705 GTCCCAGACA-GGATCTTACACGAAATCAGATACGATGCCAAT
1 GTCCCAGACATGG-TCTTACACGAAATCAGATACGATGCCAAT
10530747 GTCCCAGACATGGTCTTA
1 GTCCCAGACATGGTCTTA
10530765 TACATAAATC
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 30 0.59
43 21 0.41
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCAAT
Found at i:10544285 original size:43 final size:43
Alignment explanation
Indices: 10544236--10544394 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
10544226 TATGTGTATT
* * * *
10544236 CATGTAAGACCACATCTGGGATGTTGGCATTGATATGTAATTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATTGATATATGATTA
* * * * * *
10544279 CATGTAAGACCATGTCTGGGACATCGACA-TCATATTTGATT-
1 CATGTAAGACCACGTCTGGGACGTTGGCATTGATATATGATTA
* * * *
10544320 CGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGAGATATGATTA
1 CATGTAAGACCAC-GTCTGGGA-CGTTGGCATTGATATATGATTA
10544363 CATGTAAGACCACGTCTGGGACGTTGGCATTG
1 CATGTAAGACCACGTCTGGGACGTTGGCATTG
10544395 TACGATATGT
Statistics
Matches: 88, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
41 21 0.24
42 18 0.20
43 48 0.55
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATTGATATATGATTA
Found at i:10578143 original size:51 final size:51
Alignment explanation
Indices: 10578084--10578181 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
10578074 TCCATCACCA
*
10578084 CTAATTACAACATAAGGACCTCCCATATAATAAGTCATGGCAATTAATGGT
1 CTAATTACAACATAAGGACCTCCCATATAATAAGCCATGGCAATTAATGGT
*
10578135 CTAATTACAACATAAGGACCTCCCATTTAATAAGCCATGGCAATTAA
1 CTAATTACAACATAAGGACCTCCCATATAATAAGCCATGGCAATTAA
10578182 GCATGTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (51 bp):
CTAATTACAACATAAGGACCTCCCATATAATAAGCCATGGCAATTAATGGT
Found at i:10581619 original size:26 final size:27
Alignment explanation
Indices: 10581590--10581647 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
10581580 TACATTGATG
10581590 TATGAAAT-TGAGATAAAGGTTGTTTA
1 TATGAAATATGAGATAAAGGTTGTTTA
* * *
10581616 TATGTACTCATGAGATAAAGTTTGTTTA
1 TATGAAAT-ATGAGATAAAGGTTGTTTA
10581644 TATG
1 TATG
10581648 TACTCATGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 6 0.22
28 21 0.78
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.41
Consensus pattern (27 bp):
TATGAAATATGAGATAAAGGTTGTTTA
Found at i:10581629 original size:28 final size:28
Alignment explanation
Indices: 10581598--10581658 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
10581588 TGTATGAAAT
10581598 TGAGATAAAGGTTGTTTATATGTACTCA
1 TGAGATAAAGGTTGTTTATATGTACTCA
*
10581626 TGAGATAAAGTTTGTTTATATGTACTCA
1 TGAGATAAAGGTTGTTTATATGTACTCA
10581654 TGAGA
1 TGAGA
10581659 CTAACATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (28 bp):
TGAGATAAAGGTTGTTTATATGTACTCA
Found at i:10585505 original size:21 final size:22
Alignment explanation
Indices: 10585481--10585538 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
10585471 AATGAGTGTA
10585481 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
* *
10585502 TCATAACATATCATGAGCATAC
1 TCATAGCATATCATGTGCATAC
10585524 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
10585539 ATAACTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:10588532 original size:716 final size:716
Alignment explanation
Indices: 10587159--10588603 Score: 2863
Period size: 716 Copynumber: 2.0 Consensus size: 716
10587149 AAGATCCCTT
10587159 TTCCACCATAATGACGCCACTTTTTTAGCTCCTTAGTGGCGTCACTTAACCACTTTGCTAGGGGC
1 TTCCACCATAATGACGCCACTTTTTTAGCTCCTTAGTGGCGTCACTTAACCACTTTGCTAGGGGC
10587224 TCTCTTGTGTTACATTTTACCCACATCTTTTAATATAGTCACCTATCCAATGCCCCTAACTCCTT
66 TCTCTTGTGTTACATTTTACCCACATCTTTTAATATAGTCACCTATCCAATGCCCCTAACTCCTT
*
10587289 AAGTCCAAAATTCAAAAATTCTATCGGGTTTTGGCCAACACATGGGCCTTCCATAGGCCCATTTA
131 AAGTCCAAAATTCAAAAATTCTATCGGGTTTTGGCCAACACATGGGCCTCCCATAGGCCCATTTA
10587354 CACACTCCAATTATGAATTTCACAACCAAATACCGAATTTTAAAAATTTTACCAAATTCTCAAAA
196 CACACTCCAATTATGAATTTCACAACCAAATACCGAATTTTAAAAATTTTACCAAATTCTCAAAA
*
10587419 ATTACGAAAATCCCGAAAATCAGGGTGTTACAACTCTACCCTCCTTAAAGAAATTTCGGCCTTGA
261 ATTACGAAAATCCCAAAAATCAGGGTGTTACAACTCTACCCTCCTTAAAGAAATTTCGGCCTTGA
10587484 AATTTTACCTGATCCAAATAGTTGAGGGTATTGTTGACGCATCGCCTCCTCTGACTCCCAAGTAG
326 AATTTTACCTGATCCAAATAGTTGAGGGTATTGTTGACGCATCGCCTCCTCTGACTCCCAAGTAG
10587549 CTTCTTCTTTGCCATGGTTTCTCCAAAGTACCTTCACCAATGGGACTGACTTCCTTCTCAACACC
391 CTTCTTCTTTGCCATGGTTTCTCCAAAGTACCTTCACCAATGGGACTGACTTCCTTCTCAACACC
10587614 TTGACGTCGCGATCAAGTATCTGCACAGGTTCTTCTTCGAAGGTCAAATCTAACTGCACCTCAAT
456 TTGACGTCGCGATCAAGTATCTGCACAGGTTCTTCTTCGAAGGTCAAATCTAACTGCACCTCAAT
10587679 TTCTACAACTGGCACGATATGAGTAGGATCAGAACGATATCGCCTTAGCATGGACACGTAAAAGA
521 TTCTACAACTGGCACGATATGAGTAGGATCAGAACGATATCGCCTTAGCATGGACACGTAAAAGA
10587744 CGTCGTGAATACGATCCAGCTCTAGAGGTAACTCTAGCTGATAAGCCACCGGCCCTATCCGCTTA
586 CGTCGTGAATACGATCCAGCTCTAGAGGTAACTCTAGCTGATAAGCCACCGGCCCTATCCGCTTA
10587809 AGGATCTGATAAGGCCCAATGAACCGTGGACTCAACTTGCCCTTCTTACCAAACCTCAAAATCTT
651 AGGATCTGATAAGGCCCAATGAACCGTGGACTCAACTTGCCCTTCTTACCAAACCTCAAAATCTT
10587874 C
716 C
10587875 TTCCACCATAATGACGCCACTTTTTTAGCTCCTTAGTGGCGTCACTTAACCACTTTGCTAGGGGC
1 TTCCACCATAATGACGCCACTTTTTTAGCTCCTTAGTGGCGTCACTTAACCACTTTGCTAGGGGC
10587940 TCTCTTGTGTTACATTTTACCCACATCTTTTAATATAGTCACCTATCCAATGCCCCTAACTCCTT
66 TCTCTTGTGTTACATTTTACCCACATCTTTTAATATAGTCACCTATCCAATGCCCCTAACTCCTT
10588005 AAGTCCAAAATTCAAAAATTCTATCGGGTTTTGGCCAACACATGGGCCTCCCATAGGCCCATTTA
131 AAGTCCAAAATTCAAAAATTCTATCGGGTTTTGGCCAACACATGGGCCTCCCATAGGCCCATTTA
10588070 CACACTCCAATTATGAATTTCACAACCAAATACCGAATTTTAAAAATTTTACCAAATTCTCAAAA
196 CACACTCCAATTATGAATTTCACAACCAAATACCGAATTTTAAAAATTTTACCAAATTCTCAAAA
*
10588135 ATTACGAAAATCCCAAAAATTAGGGTGTTACAACTCTACCCTCCTTAAAGAAATTTCGGCCTTGA
261 ATTACGAAAATCCCAAAAATCAGGGTGTTACAACTCTACCCTCCTTAAAGAAATTTCGGCCTTGA
10588200 AATTTTACCTGATCCAAATAGTTGAGGGTATTGTTGACGCATCGCCTCCTCTGACTCCCAAGTAG
326 AATTTTACCTGATCCAAATAGTTGAGGGTATTGTTGACGCATCGCCTCCTCTGACTCCCAAGTAG
10588265 CTTCTTCTTTGCCATGGTTTCTCCAAAGTACCTTCACCAATGGGACTGACTTCCTTCTCAACACC
391 CTTCTTCTTTGCCATGGTTTCTCCAAAGTACCTTCACCAATGGGACTGACTTCCTTCTCAACACC
10588330 TTGACGTCGCGATCAAGTATCTGCACAGGTTCTTCTTCGAAGGTCAAATCTAACTGCACCTCAAT
456 TTGACGTCGCGATCAAGTATCTGCACAGGTTCTTCTTCGAAGGTCAAATCTAACTGCACCTCAAT
10588395 TTCTACAACTGGCACGATATGAGTAGGATCAGAACGATATCGCCTTAGCATGGACACGTAAAAGA
521 TTCTACAACTGGCACGATATGAGTAGGATCAGAACGATATCGCCTTAGCATGGACACGTAAAAGA
10588460 CGTCGTGAATACGATCCAGCTCTAGAGGTAACTCTAGCTGATAAGCCACCGGCCCTATCCGCTTA
586 CGTCGTGAATACGATCCAGCTCTAGAGGTAACTCTAGCTGATAAGCCACCGGCCCTATCCGCTTA
10588525 AGGATCTGATAAGGCCCAATGAACCGTGGACTCAACTTGCCCTTCTTACCAAACCTCAAAATCTT
651 AGGATCTGATAAGGCCCAATGAACCGTGGACTCAACTTGCCCTTCTTACCAAACCTCAAAATCTT
10588590 C
716 C
10588591 TTCCACCATAATG
1 TTCCACCATAATG
10588604 GGTCTCAATC
Statistics
Matches: 726, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
716 726 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (716 bp):
TTCCACCATAATGACGCCACTTTTTTAGCTCCTTAGTGGCGTCACTTAACCACTTTGCTAGGGGC
TCTCTTGTGTTACATTTTACCCACATCTTTTAATATAGTCACCTATCCAATGCCCCTAACTCCTT
AAGTCCAAAATTCAAAAATTCTATCGGGTTTTGGCCAACACATGGGCCTCCCATAGGCCCATTTA
CACACTCCAATTATGAATTTCACAACCAAATACCGAATTTTAAAAATTTTACCAAATTCTCAAAA
ATTACGAAAATCCCAAAAATCAGGGTGTTACAACTCTACCCTCCTTAAAGAAATTTCGGCCTTGA
AATTTTACCTGATCCAAATAGTTGAGGGTATTGTTGACGCATCGCCTCCTCTGACTCCCAAGTAG
CTTCTTCTTTGCCATGGTTTCTCCAAAGTACCTTCACCAATGGGACTGACTTCCTTCTCAACACC
TTGACGTCGCGATCAAGTATCTGCACAGGTTCTTCTTCGAAGGTCAAATCTAACTGCACCTCAAT
TTCTACAACTGGCACGATATGAGTAGGATCAGAACGATATCGCCTTAGCATGGACACGTAAAAGA
CGTCGTGAATACGATCCAGCTCTAGAGGTAACTCTAGCTGATAAGCCACCGGCCCTATCCGCTTA
AGGATCTGATAAGGCCCAATGAACCGTGGACTCAACTTGCCCTTCTTACCAAACCTCAAAATCTT
C
Found at i:10593772 original size:24 final size:25
Alignment explanation
Indices: 10593745--10593796 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10593735 GCCTAGCCTC
* *
10593745 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACAGAGGCAAAGCCCT
**
10593769 TTTTGGTAAACAGAGGCAAAGCCCT
1 TTTTAATAAACAGAGGCAAAGCCCT
10593794 TTT
1 TTT
10593797 CGCACTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACAGAGGCAAAGCCCT
Found at i:10593866 original size:19 final size:20
Alignment explanation
Indices: 10593842--10593884 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
10593832 CATGTAATGA
*
10593842 GTGTA-TCATAGCATATCAT
1 GTGTACTCATAACATATCAT
10593861 GTGTATCTCATAACATATCAT
1 GTGTA-CTCATAACATATCAT
10593882 GTG
1 GTG
10593885 CATACCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
21 16 0.76
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (20 bp):
GTGTACTCATAACATATCAT
Found at i:10595770 original size:19 final size:20
Alignment explanation
Indices: 10595746--10595783 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10595736 CACAACCAAA
*
10595746 TACCAAATT-TTAAAAATTT
1 TACCAAATTCTCAAAAATTT
10595765 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
10595784 ACAAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:10605442 original size:24 final size:23
Alignment explanation
Indices: 10605415--10605465 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
10605405 ACCTAAAAAG
*
10605415 AAAATCACAAAAAATAAAGAATAA
1 AAAATAACAAAAAATAAA-AATAA
**
10605439 AAAATAATTAAAAATAAAAATAA
1 AAAATAACAAAAAATAAAAATAA
10605462 AAAA
1 AAAA
10605466 CCAAGTTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAATAACAAAAAATAAAAATAA
Found at i:10612812 original size:22 final size:23
Alignment explanation
Indices: 10612774--10612818 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
10612764 GTTTGTTAAT
10612774 GTTTATATATTTTATT-AATTTA
1 GTTTATATATTTTATTAAATTTA
*
10612796 GTTTTTAT-TTTTAATTAAATTTA
1 GTTTATATATTTT-ATTAAATTTA
10612819 ATTGTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 10 0.50
23 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
GTTTATATATTTTATTAAATTTA
Found at i:10614519 original size:9 final size:9
Alignment explanation
Indices: 10614471--10614522 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
10614461 AAAGTAAAAA
10614471 ATAAAAATT
1 ATAAAAATT
*
10614480 TTAAAAATAT
1 ATAAAAAT-T
*
10614490 TTAAAAATAT
1 ATAAAAAT-T
* *
10614500 ATCAAATTT
1 ATAAAAATT
10614509 ATAAAAATT
1 ATAAAAATT
10614518 ATAAA
1 ATAAA
10614523 TTTGTCTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
9 20 0.56
10 16 0.44
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
ATAAAAATT
Found at i:10614523 original size:17 final size:19
Alignment explanation
Indices: 10614491--10614525 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10614481 TAAAAATATT
10614491 TAAAAATATATCAAATTTA
1 TAAAAATATATCAAATTTA
10614510 TAAAAAT-TAT-AAATTT
1 TAAAAATATATCAAATTT
10614526 GTCTCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAATATATCAAATTTA
Found at i:10614617 original size:21 final size:21
Alignment explanation
Indices: 10614584--10614626 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10614574 CTAGATATGT
* * *
10614584 TTTTTAGTATTTTTTTACATA
1 TTTTTAATATTTTATAACATA
*
10614605 TTTTTAATGTTTTATAACATA
1 TTTTTAATATTTTATAACATA
10614626 T
1 T
10614627 AATGTTTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTTAATATTTTATAACATA
Found at i:10623871 original size:20 final size:19
Alignment explanation
Indices: 10623810--10623871 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 19
10623800 AAATTGAAAC
* *
10623810 AAAATTAAAACATTAGAACT
1 AAAATTAAAATATTA-AAAT
*
10623830 AAAATTAAAAAATAAATAAAAT
1 AAAATT--AAAAT-ATTAAAAT
10623852 AAAATTATAAATATTAAAAT
1 AAAATTA-AAATATTAAAAT
10623872 TGTTAAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 14 0.41
21 4 0.12
22 13 0.38
23 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATTAAAATATTAAAAT
Found at i:10625315 original size:174 final size:175
Alignment explanation
Indices: 10625094--10625586 Score: 844
Period size: 174 Copynumber: 2.8 Consensus size: 175
10625084 CCAAAATTGC
*
10625094 TATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAA
1 TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAA
* *
10625159 ATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGCCGAAATGGAGATGCCAGATCTGTTA
66 ATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTA
10625224 TCTTGGATCTACTTTGGTGTGGGAACATCCGAAAGTCAAATCTGA
131 TCTTGGATCTACTTTGGTGTGGGAACATCCGAAAGTCAAATCTGA
*
10625269 TATGTCTTCGATTTGTTCCTTGT-AACACAAGGATGCCAAATCATCTTGGATCTGTTTCAGTGAA
1 TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAA
* * *
10625333 ATCATTTAAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCCAGATCTGTTA
66 ATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTA
** *
10625398 TCTTGGATCTTTTTTGGTGTGGGAACATCCGAAAGTCAAATCTGC
131 TCTTGGATCTACTTTGGTGTGGGAACATCCGAAAGTCAAATCTGA
* * *
10625443 TACGCCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCAGTGAA
1 TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAA
* *
10625508 ATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTTGAAATGGAGATGCCATATCTGTTA
66 ATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTA
10625573 TCTTGGATCTACTT
131 TCTTGGATCTACTT
10625587 CAGTGAAATC
Statistics
Matches: 296, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
174 163 0.55
175 133 0.45
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (175 bp):
TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTGAA
ATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTA
TCTTGGATCTACTTTGGTGTGGGAACATCCGAAAGTCAAATCTGA
Found at i:10625401 original size:86 final size:86
Alignment explanation
Indices: 10625137--10625878 Score: 511
Period size: 86 Copynumber: 8.6 Consensus size: 86
10625127 ATGCCAAATC
* * * **
10625137 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGCCGA
1 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTTGA
*
10625202 AATGGAGATGCCAGATCTGTT
66 AATGGAGATGCCAAATCTGTT
** * * * * * * * * * *
10625223 ATCTTGGATCTACTTTGGTGTGGGAA-CATCCGAAAGTCAAATCTGATATGTCTTCGATTTGTTC
1 ATCTTGGATCTAC-TT-CAGT-GAAATCATCTGAAGGTTAGATCTGCTATGT-ATCTA-CT-CTC
**
10625287 C-TTGTAACA-CAAGGATGCCAAATC----
60 CGTTG-AA-ATGGA-GATGCCAAATCTGTT
** * * *
10625311 ATCTTGGATCTGTTTCAGTGAAATCATTTAAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGA
1 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTTGA
*
10625376 AATGGAGATGCCAGATCTGTT
66 AATGGAGATGCCAAATCTGTT
** ** * * * * * * * * *
10625397 ATCTTGGATCTTTTTTGGTGTGGGAA-CATCCGAAAGTCAAATCTGCTACGCCT-TCGATTTGTT
1 ATCTTGGATC-TACTT-CAGT-GAAATCATCTGAAGGTTAGATCTGCTATG--TATCTA-CT-CT
***
10625460 CC-TTGTAAACACAAGGATGCCAAATC----
59 CCGTTG-AAA-TGGA-GATGCCAAATCTGTT
*
10625486 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTTGA
1 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTTGA
*
10625551 AATGGAGATGCCATATCTGTT
66 AATGGAGATGCCAAATCTGTT
*
10625572 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTTGA
1 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTTGA
*
10625637 AATGGAGATGCCATATCTGTT
66 AATGGAGATGCCAAATCTGTT
* * * * * *
10625658 ATCTTGGATCTACTTCAGTGTAAA-CA-CGTGAAGGTCAGATCTGCTATGCTTTCGATTTGTCCC
1 ATCTTGGATCTACTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATG-TATCTA-CTCTCCG
***
10625721 TTGTAAACACAAGGATGCCAAATC----
62 TTG-AAA-TGGA-GATGCCAAATCTGTT
* * *
10625745 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCTGTCGA
1 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTTGA
* *
10625810 AATGGAGATGCCAGATTTGTT
66 AATGGAGATGCCAAATCTGTT
* **
10625831 ATCTTGGATCTGCTTCAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATG
1 ATCTTGGATCTACTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATG
10625879 CTTTGGTCTG
Statistics
Matches: 504, Mismatches: 104, Indels: 96
0.72 0.15 0.14
Matches are distributed among these distances:
82 30 0.06
83 8 0.02
84 12 0.02
85 18 0.04
86 219 0.43
87 79 0.16
88 63 0.12
89 24 0.05
90 7 0.01
91 22 0.04
92 12 0.02
93 10 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (86 bp):
ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTTGA
AATGGAGATGCCAAATCTGTT
Found at i:10625789 original size:259 final size:260
Alignment explanation
Indices: 10625311--10625878 Score: 856
Period size: 259 Copynumber: 2.2 Consensus size: 260
10625301 ATGCCAAATC
* * *
10625311 ATCTTGGATCTGTTTCAGTGAAATCATTTAAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGA
** ** *
10625376 AATGGAGATGCCAGATCTGTTATCTTGGATCTTTTTTGGTGTGGGAACATCCGAAAGTCAAATCT
66 AATGGAGATGCCAGATCTGTTATCTTGGATCTACTTCAGTGT-GAAACATCCGAAAGTCAAATCT
*
10625441 GCTACGCCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCAGTG
130 GCTACGCCTTCGATTTGTCCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCAGTG
* *
10625506 AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTTGAAATGGAGATGCCATATCTGT
195 AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGT
10625571 T
260 T
* * *
10625572 ATCTTGGATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTTGA
1 ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGA
* * * *
10625637 AATGGAGATGCCATATCTGTTATCTTGGATCTACTTCAGTGT-AAACA-CGTGAAGGTCAGATCT
66 AATGGAGATGCCAGATCTGTTATCTTGGATCTACTTCAGTGTGAAACATC-CGAAAGTCAAATCT
* *
10625700 GCTATGCTTTCGATTTGTCCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCAGTG
130 GCTACGCCTTCGATTTGTCCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCAGTG
* *
10625765 AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCTGTCGAAATGGAGATGCCAGATTTGT
195 AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGT
10625830 T
260 T
**
10625831 ATCTTGGATCTGCTTCAGTGTAAA-CA-CGTGAAGGCCAGATCTGCTATG
1 ATCTTGGATCTGCTTCAGTG-AAATCATC-TGAAGGTTAGATCTGCTATG
10625879 CTTTGGTCTG
Statistics
Matches: 279, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
258 2 0.01
259 178 0.64
260 3 0.01
261 96 0.34
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (260 bp):
ATCTTGGATCTGCTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGA
AATGGAGATGCCAGATCTGTTATCTTGGATCTACTTCAGTGTGAAACATCCGAAAGTCAAATCTG
CTACGCCTTCGATTTGTCCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCAGTGA
AATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTT
Found at i:10626824 original size:39 final size:39
Alignment explanation
Indices: 10626770--10626845 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
10626760 GGTTTTCGCC
10626770 CTGAATTATTCTCCTTTAGACAAAGTACTTTTTGACTCT
1 CTGAATTATTCTCCTTTAGACAAAGTACTTTTTGACTCT
* *
10626809 CTGAATTCTTTTCCTTTAGACAAAGTACTTTTTGACT
1 CTGAATTATTCTCCTTTAGACAAAGTACTTTTTGACT
10626846 GAGTCTGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.45
Consensus pattern (39 bp):
CTGAATTATTCTCCTTTAGACAAAGTACTTTTTGACTCT
Found at i:10631762 original size:28 final size:28
Alignment explanation
Indices: 10631722--10631778 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10631712 CTCCTCCTCC
10631722 TTTACTGGCTCATTGATTGGTACTTCGG
1 TTTACTGGCTCATTGATTGGTACTTCGG
10631750 TTTACTGGCTCATTGATTGGTACTTCGG
1 TTTACTGGCTCATTGATTGGTACTTCGG
10631778 T
1 T
10631779 CTTTTTCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.44
Consensus pattern (28 bp):
TTTACTGGCTCATTGATTGGTACTTCGG
Found at i:10633995 original size:14 final size:16
Alignment explanation
Indices: 10633964--10633996 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
10633954 CGATGCGATA
10633964 AAATGCTATGAGATGC
1 AAATGCTATGAGATGC
10633980 AAATGC-ATGA-ATGC
1 AAATGCTATGAGATGC
10633994 AAA
1 AAA
10633997 AAGGACATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (16 bp):
AAATGCTATGAGATGC
Found at i:10638162 original size:20 final size:19
Alignment explanation
Indices: 10638101--10638162 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 19
10638091 AAATTGAAAC
* *
10638101 AAAATTAAAACATTAGAACT
1 AAAATTAAAATATTA-AAAT
*
10638121 AAAATTAAAAAATAAATAAAAT
1 AAAATT--AAAAT-ATTAAAAT
10638143 AAAATTATAAATATTAAAAT
1 AAAATTA-AAATATTAAAAT
10638163 TGTTAAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 14 0.41
21 4 0.12
22 13 0.38
23 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATTAAAATATTAAAAT
Found at i:10639382 original size:38 final size:38
Alignment explanation
Indices: 10639340--10639428 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 38
10639330 AAACAACAGA
* *
10639340 CATGCTTAACATGTATTC-AGTTCAACATTAGA-AGTAGG
1 CATGCTTAACATGTATTCGA-TTCAACAATA-ATAGTAAG
10639378 CATGCTTAACATGTATTCGATTCAACAATAATAGTAAG
1 CATGCTTAACATGTATTCGATTCAACAATAATAGTAAG
*
10639416 CATGCTGAACATG
1 CATGCTTAACATG
10639429 CAATCGGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
37 1 0.02
38 44 0.96
39 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (38 bp):
CATGCTTAACATGTATTCGATTCAACAATAATAGTAAG
Found at i:10641576 original size:32 final size:32
Alignment explanation
Indices: 10641535--10641604 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
10641525 GTTTCTAGCA
10641535 AATCATGTTTCACCACTTGATTTATTAAATTT
1 AATCATGTTTCACCACTTGATTTATTAAATTT
10641567 AATCATGTTTCACCACTTGATTTATTAAATTT
1 AATCATGTTTCACCACTTGATTTATTAAATTT
*
10641599 AGTCAT
1 AATCAT
10641605 CAACAAGGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (32 bp):
AATCATGTTTCACCACTTGATTTATTAAATTT
Found at i:10642526 original size:25 final size:25
Alignment explanation
Indices: 10642497--10642547 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10642487 TACAAATTTA
**
10642497 TGTTTTTAAGTTGCGTCTTTTAATT
1 TGTTTTTAAGTCACGTCTTTTAATT
* *
10642522 TGTTTTTAGGTCATGTCTTTTAATT
1 TGTTTTTAAGTCACGTCTTTTAATT
10642547 T
1 T
10642548 TCTCTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (25 bp):
TGTTTTTAAGTCACGTCTTTTAATT
Found at i:10644499 original size:14 final size:15
Alignment explanation
Indices: 10644482--10644518 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
10644472 TATAACTTAA
*
10644482 AATTTTT-AATACTT
1 AATTTTTCAAGACTT
10644496 AATTTTTCAAGACTT
1 AATTTTTCAAGACTT
10644511 -ATTTTTCA
1 AATTTTTCA
10644519 GTACTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTTTCAAGACTT
Found at i:10644524 original size:14 final size:15
Alignment explanation
Indices: 10644483--10644529 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
10644473 ATAACTTAAA
10644483 ATTTTT-AA-TACTT
1 ATTTTTCAAGTACTT
10644496 AATTTTTCAAG-ACTT
1 -ATTTTTCAAGTACTT
10644511 ATTTTTC-AGTACTT
1 ATTTTTCAAGTACTT
10644525 -TTTTT
1 ATTTTT
10644530 TTAGTTTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.23
14 17 0.57
15 6 0.20
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.60
Consensus pattern (15 bp):
ATTTTTCAAGTACTT
Found at i:10645451 original size:50 final size:50
Alignment explanation
Indices: 10645371--10645469 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
10645361 GGATTAGTCT
* * *
10645371 ATATTATTTAAGGAGTAGGACGAATAATATATTTGTGTTTATATTTTTTC
1 ATATAATTTAAGGAGTAGGACCAATAATATATTTGGGTTTATATTTTTTC
* *
10645421 ATATAATTTAAGGTGTAGGACCAATCATATATTTGGGTTTATATTTTTT
1 ATATAATTTAAGGAGTAGGACCAATAATATATTTGGGTTTATATTTTTT
10645470 TACATAGATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.47
Consensus pattern (50 bp):
ATATAATTTAAGGAGTAGGACCAATAATATATTTGGGTTTATATTTTTTC
Found at i:10649043 original size:30 final size:30
Alignment explanation
Indices: 10649007--10649067 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10648997 GAGTTTTCAG
* * *
10649007 GATCCACTCAGGCTGGGCACATGCCCATGT
1 GATCCACACAGGCAGGCCACATGCCCATGT
* *
10649037 GATCCACACGGGCAGGCCACATGCTCATGT
1 GATCCACACAGGCAGGCCACATGCCCATGT
10649067 G
1 G
10649068 CCAGCCCGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (30 bp):
GATCCACACAGGCAGGCCACATGCCCATGT
Found at i:10649471 original size:12 final size:12
Alignment explanation
Indices: 10649436--10649474 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
10649426 TAAATACTTG
10649436 TTCTTGTTCTTAA
1 TTCTTGTT-TTAA
*
10649449 TTATGTGTTTTAA
1 TTCT-TGTTTTAA
10649462 TTCTTGTTTTAA
1 TTCTTGTTTTAA
10649474 T
1 T
10649475 ATTTTTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 9 0.39
13 10 0.43
14 4 0.17
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.64
Consensus pattern (12 bp):
TTCTTGTTTTAA
Found at i:10650187 original size:11 final size:11
Alignment explanation
Indices: 10650154--10650196 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
10650144 TAATTTAGCC
10650154 ATTTTTATTTT
1 ATTTTTATTTT
**
10650165 A-TTGCATTTT
1 ATTTTTATTTT
*
10650175 ATTTTTGTTTT
1 ATTTTTATTTT
10650186 ATTTTTATTTT
1 ATTTTTATTTT
10650197 TAATTACTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:10651551 original size:50 final size:52
Alignment explanation
Indices: 10651456--10651556 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 52
10651446 AGGATAATAC
*
10651456 AATAATATAATAGTAATAATAACAATATAAAAATAGCAATGATAGTAATAAAA
1 AATAATATAATAG-AATAATAACAATATAAAAATAGCAATAATAGTAATAAAA
* * ***
10651509 AATAATATATTA-AATAATAGCAA-ATAAAAATAGTGCTAATAGTAATAA
1 AATAATATAATAGAATAATAACAATATAAAAATAGCAATAATAGTAATAA
10651557 TAGTGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 21 0.50
51 10 0.24
53 11 0.26
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (52 bp):
AATAATATAATAGAATAATAACAATATAAAAATAGCAATAATAGTAATAAAA
Found at i:10651560 original size:18 final size:18
Alignment explanation
Indices: 10651531--10651573 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10651521 AATAATAGCA
* *
10651531 AATAAAAATAGTGCTAAT
1 AATAATAATAGTGATAAT
*
10651549 AGTAATAATAGTGATAAT
1 AATAATAATAGTGATAAT
10651567 AATAATA
1 AATAATA
10651574 GTATGAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (18 bp):
AATAATAATAGTGATAAT
Found at i:10651626 original size:26 final size:24
Alignment explanation
Indices: 10651597--10651656 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
10651587 AGCAATAGTA
*
10651597 AAATAATGATATTAATACCTAAATAT
1 AAATAATGACA-TAATACCTAAA-AT
*
10651623 AAAT-ATAGACATAATATCTAAAAT
1 AAATAAT-GACATAATACCTAAAAT
10651647 ATAATAATGA
1 A-AATAATGA
10651657 AAATATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 3 0.10
25 17 0.59
26 9 0.31
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.32
Consensus pattern (24 bp):
AAATAATGACATAATACCTAAAAT
Found at i:10652241 original size:3 final size:3
Alignment explanation
Indices: 10652235--10652272 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10652225 AAAAGAAGAT
10652235 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
10652273 GTGAGTAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10656478 original size:30 final size:30
Alignment explanation
Indices: 10656442--10656498 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
10656432 TTAGAGAGTT
* *
10656442 ACACGGCCTGGCCACACGGGTGTGTGGAGC
1 ACACGGCCTAGCCACACGGGCGTGTGGAGC
10656472 ACACGGCCTAGCCACACGGGCGTGTGG
1 ACACGGCCTAGCCACACGGGCGTGTGG
10656499 GATCTCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.18, C:0.32, G:0.39, T:0.12
Consensus pattern (30 bp):
ACACGGCCTAGCCACACGGGCGTGTGGAGC
Found at i:10656596 original size:199 final size:199
Alignment explanation
Indices: 10656249--10656665 Score: 726
Period size: 199 Copynumber: 2.1 Consensus size: 199
10656239 ACCTACATGA
10656249 CCTGGCCACACGGGTGTGTGGAGCACACGGCCTAGCCACACGGGCGTGTAGGATCTCACATGGGT
1 CCTGGCCACACGGGTGTGTGGAGCACACGGCCTAGCCACACGGGCGTGTAGGATCTCACATGGGT
* * *
10656314 GTGGGAGAAGCGAAGGAAAACACATACGGCCTGGCGACATGGCCATGTGACCCACACGGCTTGGA
66 GTGGGAGAAGCGAAGGAAAACACACACGACCTGGCGACATGGCCATGTGACCCACACAGCTTGGA
* * * * *
10656379 CACATGGGCGTGTCCTAGGCCGTGTGAAATCTGGAGCTAATTTTTTTTCAAAGTTAGAGAGTTAC
131 CAAACGGGCGTATCCTAGGCCGTGTGAAATCTGGAGCTAATTTTTTTTCAAAGTCAGAGAGTTAA
10656444 ACGG
196 ACGG
*
10656448 CCTGGCCACACGGGTGTGTGGAGCACACGGCCTAGCCACACGGGCGTGTGGGATCTCACATGGGT
1 CCTGGCCACACGGGTGTGTGGAGCACACGGCCTAGCCACACGGGCGTGTAGGATCTCACATGGGT
*
10656513 GTGGGAGAAGCGAAGGAAAACACACACGACTTGGCGACATGGCCATGTGACCCACACAGCTTGGA
66 GTGGGAGAAGCGAAGGAAAACACACACGACCTGGCGACATGGCCATGTGACCCACACAGCTTGGA
10656578 CAAACGGGCGTATCCTAGGCCGTGTGAAATCTGGAGCTAATTTTTTTTCAAAGTCAGAGAGTTAA
131 CAAACGGGCGTATCCTAGGCCGTGTGAAATCTGGAGCTAATTTTTTTTCAAAGTCAGAGAGTTAA
*
10656643 ATGG
196 ACGG
*
10656647 CCTGGCCACACGGGCGTGT
1 CCTGGCCACACGGGTGTGT
10656666 AGGATCTCAC
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
199 206 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (199 bp):
CCTGGCCACACGGGTGTGTGGAGCACACGGCCTAGCCACACGGGCGTGTAGGATCTCACATGGGT
GTGGGAGAAGCGAAGGAAAACACACACGACCTGGCGACATGGCCATGTGACCCACACAGCTTGGA
CAAACGGGCGTATCCTAGGCCGTGTGAAATCTGGAGCTAATTTTTTTTCAAAGTCAGAGAGTTAA
ACGG
Found at i:10656882 original size:9 final size:9
Alignment explanation
Indices: 10656870--10656911 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
10656860 ATTCTTATAC
10656870 TTATATTTT
1 TTATATTTT
10656879 TTATATTTT
1 TTATATTTT
10656888 TTATATATTT
1 TTATAT-TTT
10656898 TT-TAATTTT
1 TTAT-ATTTT
10656907 TTATA
1 TTATA
10656912 AGCTTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATATTTT
Found at i:10656896 original size:20 final size:19
Alignment explanation
Indices: 10656871--10656911 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
10656861 TTCTTATACT
10656871 TATATTTTTTATATTTTTTA
1 TATATTTTTTA-ATTTTTTA
10656891 TATATTTTTTAATTTTTTA
1 TATATTTTTTAATTTTTTA
10656910 TA
1 TA
10656912 AGCTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TATATTTTTTAATTTTTTA
Found at i:10657046 original size:11 final size:11
Alignment explanation
Indices: 10657024--10657053 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
10657014 ATCAATGAGT
10657024 TTATTATTATTA
1 TTATT-TTATTA
10657036 TTATTTTATTA
1 TTATTTTATTA
10657047 TTATTTT
1 TTATTTT
10657054 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:10657046 original size:14 final size:14
Alignment explanation
Indices: 10657027--10657057 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10657017 AATGAGTTTA
10657027 TTATTATTATTATT
1 TTATTATTATTATT
*
10657041 TTATTATTATTTTT
1 TTATTATTATTATT
10657055 TTA
1 TTA
10657058 AATTTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTATTATTATT
Found at i:10658041 original size:11 final size:10
Alignment explanation
Indices: 10658023--10658052 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10658013 TATTATTCAT
10658023 TCAAAAAAAG
1 TCAAAAAAAG
*
10658033 TTAAAAAAAG
1 TCAAAAAAAG
10658043 TCAAAAAAAG
1 TCAAAAAAAG
10658053 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (10 bp):
TCAAAAAAAG
Found at i:10658058 original size:20 final size:20
Alignment explanation
Indices: 10658023--10658061 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10658013 TATTATTCAT
**
10658023 TCAAAAAAAGTTAAAAAAAG
1 TCAAAAAAAGAAAAAAAAAG
10658043 TCAAAAAAAGAAAAAAAAA
1 TCAAAAAAAGAAAAAAAAA
10658062 ACATATATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (20 bp):
TCAAAAAAAGAAAAAAAAAG
Found at i:10664681 original size:26 final size:27
Alignment explanation
Indices: 10664652--10664710 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
10664642 CAAACTCAAT
* *
10664652 AAAAATAAAATAATAATTAAAAAT-TA
1 AAAAATAAAATAAAAACTAAAAATGTA
**
10664678 AAAAATTTAATAAAAACTAAAAATGTA
1 AAAAATAAAATAAAAACTAAAAATGTA
10664705 ATAAAA
1 A-AAAA
10664711 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 20 0.74
27 3 0.11
28 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAAATAAAATAAAAACTAAAAATGTA
Found at i:10664690 original size:37 final size:37
Alignment explanation
Indices: 10664649--10664719 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
10664639 ACCCAAACTC
10664649 AATAAAAA-T-AAAATAATAATTAAAAATTAAAAAATTT
1 AATAAAAACTAAAAAT-ATAA-TAAAAATTAAAAAATTT
*
10664686 AATAAAAACTAAAAATGTAATAAAAATTAAAAAA
1 AATAAAAACTAAAAATATAATAAAAATTAAAAAA
10664720 ACATTAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 22 0.71
38 4 0.13
39 5 0.16
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (37 bp):
AATAAAAACTAAAAATATAATAAAAATTAAAAAATTT
Found at i:10664692 original size:18 final size:19
Alignment explanation
Indices: 10664649--10664719 Score: 78
Period size: 18 Copynumber: 3.8 Consensus size: 19
10664639 ACCCAAACTC
10664649 AATAAAAA-TAAAATAA--T
1 AATAAAAATTAAAA-AATGT
*
10664666 AATTAAAAATTAAAAAATTT
1 AA-TAAAAATTAAAAAATGT
*
10664686 AATAAAAACT-AAAAATGT
1 AATAAAAATTAAAAAATGT
10664704 AATAAAAATTAAAAAA
1 AATAAAAATTAAAAAA
10664720 ACATTAAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.04
18 24 0.52
19 17 0.37
20 3 0.07
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (19 bp):
AATAAAAATTAAAAAATGT
Found at i:10685429 original size:18 final size:18
Alignment explanation
Indices: 10685406--10685442 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10685396 ATTGGTTGAC
10685406 TAAATTGTAAAAGTTCAA
1 TAAATTGTAAAAGTTCAA
10685424 TAAATTGTAAAAGTTCAA
1 TAAATTGTAAAAGTTCAA
10685442 T
1 T
10685443 TGATATTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (18 bp):
TAAATTGTAAAAGTTCAA
Found at i:10689733 original size:43 final size:43
Alignment explanation
Indices: 10689680--10689829 Score: 237
Period size: 43 Copynumber: 3.5 Consensus size: 43
10689670 GCTGGTATTA
*
10689680 TATTCGGGCCTTCGTGCCTAATAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCTTAGTGCCGGTGATGTG
* *
10689723 TATTTGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCTTAGTGCCGGTGATGTG
* * * *
10689766 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAACAGGCTTAGTGCCGGTGATGTG
10689809 TATTCGGGCCTTCGTGCCTAA
1 TATTCGGGCCTTCGTGCCTAA
10689830 GTTATCAAAT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAACAGGCTTAGTGCCGGTGATGTG
Found at i:10689803 original size:86 final size:84
Alignment explanation
Indices: 10689659--10689828 Score: 241
Period size: 86 Copynumber: 2.0 Consensus size: 84
10689649 GATAAATCCT
* *
10689659 GCAGGCCTAGTGCTGGTATTATATTCGGGCCTTCGTGCCTAATAGGCTTAGTGCCGGTGATGTGT
1 GCAGGCCTAGTGCCGGTATTATATTCGGGCCTTCGTGCCTAACAGGCTTAGTGCCGGTGATGTGT
*
10689724 ATTTGGGCCTTCGTGCCTA
66 ATTCGGGCCTTCGTGCCTA
* * * * * *
10689743 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGT
1 GCAGGCCTAGTGCCGGT-AT-TATATTCGGGCCTTCGTGCCTAACAGGCTTAGTGCCGGTGATGT
10689808 GTATTCGGGCCTTCGTGCCTA
64 GTATTCGGGCCTTCGTGCCTA
10689829 AGTTATCAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
84 15 0.20
85 2 0.03
86 58 0.77
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.33
Consensus pattern (84 bp):
GCAGGCCTAGTGCCGGTATTATATTCGGGCCTTCGTGCCTAACAGGCTTAGTGCCGGTGATGTGT
ATTCGGGCCTTCGTGCCTA
Found at i:10692257 original size:38 final size:38
Alignment explanation
Indices: 10692215--10692291 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
10692205 CATTTGTTTC
10692215 ATGTGAAACTAGACATAATAAGCTTCAATTTGATATGT
1 ATGTGAAACTAGACATAATAAGCTTCAATTTGATATGT
10692253 ATGTGAAACTAGACATAATAAGCTTCAATTTGATATGT
1 ATGTGAAACTAGACATAATAAGCTTCAATTTGATATGT
10692291 A
1 A
10692292 GTCCATCACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (38 bp):
ATGTGAAACTAGACATAATAAGCTTCAATTTGATATGT
Found at i:10693077 original size:46 final size:46
Alignment explanation
Indices: 10693010--10693230 Score: 397
Period size: 46 Copynumber: 4.8 Consensus size: 46
10693000 TGTAACCCGC
* * * * *
10693010 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10693056 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10693102 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10693148 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10693194 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10693231 TGCTCAACCA
Statistics
Matches: 170, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 170 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10700235 original size:46 final size:46
Alignment explanation
Indices: 10700168--10700434 Score: 480
Period size: 46 Copynumber: 5.8 Consensus size: 46
10700158 TGTAACCCGC
* * * * *
10700168 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10700214 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10700260 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10700306 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10700352 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10700398 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10700435 TGCTCAATCA
Statistics
Matches: 215, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 215 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10700891 original size:30 final size:30
Alignment explanation
Indices: 10700857--10700916 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
10700847 ATTTAATACG
10700857 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
10700887 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
10700917 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:10703643 original size:37 final size:37
Alignment explanation
Indices: 10703591--10703664 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
10703581 AAAAATCAAG
*
10703591 TAAAAAATTGTGTCCATCTTCCTCCTAGTGTACCGAA
1 TAAAAAATTGAGTCCATCTTCCTCCTAGTGTACCGAA
*
10703628 TAAAAAATTGAGTCCATCTTCCTCCTAGTGTGCCGAA
1 TAAAAAATTGAGTCCATCTTCCTCCTAGTGTACCGAA
10703665 ATTTGCAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (37 bp):
TAAAAAATTGAGTCCATCTTCCTCCTAGTGTACCGAA
Found at i:10706098 original size:31 final size:31
Alignment explanation
Indices: 10706057--10706122 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
10706047 CACTCAGGCG
*
10706057 TGTGTGACCACACGGCCTACCCACACGGGCA
1 TGTGTAACCACACGGCCTACCCACACGGGCA
*
10706088 TGTGTAACCACACGGCGTACCCACACGGGCA
1 TGTGTAACCACACGGCCTACCCACACGGGCA
10706119 TGTG
1 TGTG
10706123 ACTCTCGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.35, G:0.27, T:0.15
Consensus pattern (31 bp):
TGTGTAACCACACGGCCTACCCACACGGGCA
Found at i:10711135 original size:12 final size:14
Alignment explanation
Indices: 10711120--10711151 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10711110 GTGAGAACAC
10711120 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
10711132 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
10711146 ATGTGT
1 ATGTGT
10711152 TTAAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:10711313 original size:51 final size:51
Alignment explanation
Indices: 10711117--10711354 Score: 199
Period size: 51 Copynumber: 4.7 Consensus size: 51
10711107 ATTGTGAGAA
* * * *** * **
10711117 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGATTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGAT-AGCTTAGGT
* * * * *
10711169 CACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATTG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGCTTAGGT
* * ** * * *
10711219 CGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGCTTAGGT
* ** *
10711270 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGCTTAGGT
* * * *
10711321 CACAAGTGTAGTACTATGTGAAGGCCACTTTGTG
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTG
10711355 AAGAAGGTAG
Statistics
Matches: 149, Mismatches: 36, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 42 0.28
51 74 0.50
52 33 0.22
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGCTTAGGT
Found at i:10713297 original size:21 final size:21
Alignment explanation
Indices: 10713273--10713322 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
10713263 ACATGGGGTT
10713273 GAAGAGGCTACGTGGGAGCCC
1 GAAGAGGCTACGTGGGAGCCC
10713294 GAAGAGGCTACGTGGGAGCCC
1 GAAGAGGCTACGTGGGAGCCC
*
10713315 GAGGAGGC
1 GAAGAGGC
10713323 CACGAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.46, T:0.08
Consensus pattern (21 bp):
GAAGAGGCTACGTGGGAGCCC
Found at i:10717554 original size:55 final size:55
Alignment explanation
Indices: 10717357--10717555 Score: 204
Period size: 55 Copynumber: 3.6 Consensus size: 55
10717347 GTTCTGGAAA
* * * *
10717357 ACTTTCCTTATATTACATAGTCGTCATGAACTTTCACAAAAGATAGTCTTGGTGG
1 ACTTTCCATATATTAGATAGTCCTCATGAACTTCCACAAAAGATAGTCTTGGTGG
* * * * * *
10717412 ACTTTCCACATATTAGATAGTCCTTAAGAACTTCCACAAAAGATACTCCTGGTAG
1 ACTTTCCATATATTAGATAGTCCTCATGAACTTCCACAAAAGATAGTCTTGGTGG
* * * * * * * *
10717467 ATTTTTCATATTTTCA-ACAGTCCTTACGGACTTCCAGAAAAGATAGTCTTGGTGG
1 ACTTTCCATATATT-AGATAGTCCTCATGAACTTCCACAAAAGATAGTCTTGGTGG
10717522 ACTTTCCATATATTAGATAGTCCTCACTG-ACTTC
1 ACTTTCCATATATTAGATAGTCCTCA-TGAACTTC
10717556 TATATATACA
Statistics
Matches: 114, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
54 1 0.01
55 111 0.97
56 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (55 bp):
ACTTTCCATATATTAGATAGTCCTCATGAACTTCCACAAAAGATAGTCTTGGTGG
Found at i:10731266 original size:55 final size:55
Alignment explanation
Indices: 10731148--10731270 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 55
10731138 GGATGTCTAA
* * * * *
10731148 TTTATAAGTTAGTATAGGACACGGGTAGGCCACATGGGCGTCTACCATAGCCATG
1 TTTAAAAGTCAGTATAGAACACGGGTACGCCACAAGGGCGTCTACCATAGCCATG
*** * * * * *
10731203 TCCCAAAGTCAGTATTGAACACGGGTACTCCACAAGGGCGTGTGCCATGGCCATG
1 TTTAAAAGTCAGTATAGAACACGGGTACGCCACAAGGGCGTCTACCATAGCCATG
10731258 TTTAAAAGTCAGT
1 TTTAAAAGTCAGT
10731271 GTTGCCTACG
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (55 bp):
TTTAAAAGTCAGTATAGAACACGGGTACGCCACAAGGGCGTCTACCATAGCCATG
Found at i:10735484 original size:50 final size:49
Alignment explanation
Indices: 10735366--10735541 Score: 203
Period size: 50 Copynumber: 3.5 Consensus size: 49
10735356 CTGGTACGCA
* **
10735366 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
10735415 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* *** * *
10735465 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
10735516 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
10735542 TGCGACCTCA
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 30 0.27
50 41 0.37
51 36 0.33
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:10735539 original size:101 final size:99
Alignment explanation
Indices: 10735366--10735552 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 99
10735356 CTGGTACGCA
* * *
10735366 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
10735431 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* *
10735465 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
10735529 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
10735553 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 31 0.40
101 43 0.55
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:10739753 original size:27 final size:27
Alignment explanation
Indices: 10739715--10739770 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
10739705 CTCATGCATT
10739715 AGATATTCCCGTAGCATTATTTTCATA
1 AGATATTCCCGTAGCATTATTTTCATA
10739742 AGATATTCCCGTAGCATTATTTTCATA
1 AGATATTCCCGTAGCATTATTTTCATA
10739769 AG
1 AG
10739771 TCTTATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (27 bp):
AGATATTCCCGTAGCATTATTTTCATA
Found at i:10745197 original size:43 final size:42
Alignment explanation
Indices: 10745104--10745254 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 42
10745094 GATTATCGAG
* * *
10745104 ATGTGATTACATGTAAGACCATGTGTGGGATATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
**
10745146 ATTGTGATTACGGGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * *
10745190 ATATGATTTCGTATAAGATCC-TGTTTGGGACAATGGCATCGAT
1 ATGTGATTACATGTAAGA-CCATGTCTGGGACATTGGCATCG-T
*
10745233 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
10745255 ATCTAGGATA
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.03
43 81 0.92
44 4 0.05
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:10747030 original size:31 final size:31
Alignment explanation
Indices: 10746987--10747050 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
10746977 CCTTTTCATA
*
10746987 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
* **
10747018 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
10747049 TT
1 TT
10747051 ACGGTAAGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCAAAGCCT
Found at i:10747347 original size:24 final size:24
Alignment explanation
Indices: 10747262--10747386 Score: 191
Period size: 24 Copynumber: 5.2 Consensus size: 24
10747252 GGCCTAGTCT
10747262 CTTTTAATAACTGGGGCA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCC
10747285 CTTTTTTAATAACTGGGGCATAAGCC
1 C--TTTTAATAACTGGGGCATAAGCC
*
10747311 C-TTTAATAGCTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
10747334 CTTTTAATAACTGGGGAATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
10747358 CTTTTAATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
10747382 CTTTT
1 CTTTT
10747387 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
23 23 0.25
24 47 0.51
25 17 0.18
26 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:10747463 original size:20 final size:20
Alignment explanation
Indices: 10747440--10747482 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
10747430 GAACATCTCG
10747440 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
10747460 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
10747480 TGT
1 TGT
10747483 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:10747547 original size:25 final size:25
Alignment explanation
Indices: 10747519--10747566 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
10747509 ATATATAAAC
* *
10747519 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
10747544 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
10747567 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:10750503 original size:108 final size:108
Alignment explanation
Indices: 10750350--10750586 Score: 420
Period size: 108 Copynumber: 2.2 Consensus size: 108
10750340 TAGTCAGACA
** * * *
10750350 GGCGTGTGGTTGGCCGTGTGACCTAAGTTAGGGAGTTAAATGGGTAGGACTCGGGCTGGGACATG
1 GGCGTGTCTTTGGCAGTGTGACCTAAGTTAGGGAGTTAAACGGGTAGGACTCGAGCTGGGACATG
10750415 GCCATGTGATCGCATTTCGAATGTCCACACGGCCTGTGACACG
66 GCCATGTGATCGCATTTCGAATGTCCACACGGCCTGTGACACG
10750458 GGCGTGTCTTTGGCAGTGTGACCTAAGTTAGGGAGTTAAACGGGTAGGACTCGAGCTGGGACATG
1 GGCGTGTCTTTGGCAGTGTGACCTAAGTTAGGGAGTTAAACGGGTAGGACTCGAGCTGGGACATG
*
10750523 GCCATGTGATCGCATTTCGAATGTCTACACGGCCTGTGACACG
66 GCCATGTGATCGCATTTCGAATGTCCACACGGCCTGTGACACG
10750566 GGCGTGTCTTTGGCAGTGTGA
1 GGCGTGTCTTTGGCAGTGTGA
10750587 GACACACGGC
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 123 1.00
ACGTcount: A:0.19, C:0.20, G:0.35, T:0.25
Consensus pattern (108 bp):
GGCGTGTCTTTGGCAGTGTGACCTAAGTTAGGGAGTTAAACGGGTAGGACTCGAGCTGGGACATG
GCCATGTGATCGCATTTCGAATGTCCACACGGCCTGTGACACG
Found at i:10755833 original size:31 final size:31
Alignment explanation
Indices: 10755798--10755859 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
10755788 AAAGCCGAAA
**
10755798 GAGTGTGTGAATCCACACGTATTGATTTGAC
1 GAGTGTGTGAATCCACACACATTGATTTGAC
10755829 GAGTGTGTGAATCCACACACATTGATTTGAC
1 GAGTGTGTGAATCCACACACATTGATTTGAC
10755860 CATAGGTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (31 bp):
GAGTGTGTGAATCCACACACATTGATTTGAC
Found at i:10756939 original size:27 final size:26
Alignment explanation
Indices: 10756857--10756945 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 26
10756847 TGCAAATCGC
*
10756857 ATTTACCAGTGGCTATGTGCCTATCAT
1 ATTTACCA-TGGCTATGTGCCGATCAT
* * * *
10756884 ATTTATCGATGACTCTGTAG-TGATCAT
1 ATTTA-CCATGGCTATGT-GCCGATCAT
*
10756911 ATTTACCCATGGCTATGTGCCGATTAT
1 ATTTA-CCATGGCTATGTGCCGATCAT
10756938 A-TTACCAT
1 ATTTACCAT
10756946 CGCTGATGGC
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 37 0.77
28 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (26 bp):
ATTTACCATGGCTATGTGCCGATCAT
Found at i:10770794 original size:57 final size:58
Alignment explanation
Indices: 10770659--10770797 Score: 146
Period size: 57 Copynumber: 2.4 Consensus size: 58
10770649 TTATAGAAAG
* * *
10770659 GATTTATCTTAGACTAGTAATCCTGATATAAGTCCTCTTGAGCATATGTTATGGATAA
1 GATTTATCTTGGACAAGTAATCCTGATATAAGTCCTCTTGAGCATATGTTATGGACAA
**
10770717 GATTTAT-TTGGGACGGGTAATCCTGAT-TAAG--CTCTTGTGAGCATATG-T-TGGAAACAA
1 GATTTATCTT-GGACAAGTAATCCTGATATAAGTCCTC-T-TGAGCATATGTTATGG--ACAA
10770774 GATTTATCTTGGACAAGTAATCCT
1 GATTTATCTTGGACAAGTAATCCT
10770798 TTTATGTGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
55 6 0.09
56 2 0.03
57 38 0.55
58 23 0.33
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (58 bp):
GATTTATCTTGGACAAGTAATCCTGATATAAGTCCTCTTGAGCATATGTTATGGACAA
Found at i:10775660 original size:21 final size:20
Alignment explanation
Indices: 10775636--10775674 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10775626 TAGAATATGT
10775636 GTACAAAAGAATTCTGAATTA
1 GTACAAAAG-ATTCTGAATTA
* *
10775657 GTACAGAAGATTTTGAAT
1 GTACAAAAGATTCTGAAT
10775675 GAAGCTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (20 bp):
GTACAAAAGATTCTGAATTA
Found at i:10788004 original size:13 final size:13
Alignment explanation
Indices: 10787986--10788011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10787976 ATATTATAAT
10787986 TATTTTATGTTAA
1 TATTTTATGTTAA
10787999 TATTTTATGTTAA
1 TATTTTATGTTAA
10788012 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:10791295 original size:47 final size:47
Alignment explanation
Indices: 10790312--10791258 Score: 1777
Period size: 47 Copynumber: 20.1 Consensus size: 47
10790302 TTAGGATTTT
* ** * * * *
10790312 ATGTGATGAATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
10790359 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCTGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
10790406 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790453 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790500 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790547 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790594 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790641 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790688 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790735 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790782 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790829 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790876 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790923 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10790970 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10791017 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10791064 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10791111 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10791158 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
10791205 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
10791252 ATGTGAT
1 ATGTGAT
10791259 GAACGTGGAA
Statistics
Matches: 886, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 886 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (47 bp):
ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:10791328 original size:46 final size:46
Alignment explanation
Indices: 10791275--10791365 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
10791265 GGAAGTGTAT
* * *
10791275 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
10791321 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
10791366 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:10793659 original size:23 final size:24
Alignment explanation
Indices: 10793633--10793677 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
10793623 TCATCCCTAC
*
10793633 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
10793656 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
10793678 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:10798309 original size:39 final size:40
Alignment explanation
Indices: 10798192--10798376 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
10798182 GCTCCTCGTT
*
10798192 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
10798232 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* *
10798272 CAAATGCCTTC-GGCCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * * *
10798311 CAAATGCCTTC-GGATCTTGGTCCGAATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
10798352 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10798377 CATCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 38 0.31
40 68 0.56
41 16 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:10799950 original size:12 final size:11
Alignment explanation
Indices: 10799919--10799963 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
10799909 AATTTCTATA
*
10799919 TATTTATTATT
1 TATTTATTTTT
*
10799930 TAGTTATTTTT
1 TATTTATTTTT
*
10799941 TATTTTATTTTA
1 TA-TTTATTTTT
10799953 TATTTATTTTT
1 TATTTATTTTT
10799964 CTTAAGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:10800641 original size:17 final size:17
Alignment explanation
Indices: 10800621--10800671 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
10800611 TTCCTGATTA
*
10800621 GTTTATTGATTTTTATC
1 GTTTATTTATTTTTATC
* * *
10800638 GTTTGTTTATTTTTCTT
1 GTTTATTTATTTTTATC
*
10800655 ATTTATTTATTTTTATC
1 GTTTATTTATTTTTATC
10800672 TCAATTATTT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.06, G:0.08, T:0.71
Consensus pattern (17 bp):
GTTTATTTATTTTTATC
Found at i:10803554 original size:8 final size:8
Alignment explanation
Indices: 10803528--10803557 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10803518 CGAAATGTCA
10803528 GCTTTTCG
1 GCTTTTCG
*
10803536 GCATTTCG
1 GCTTTTCG
10803544 GCTTTTCG
1 GCTTTTCG
10803552 GCTTTT
1 GCTTTT
10803558 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:10806501 original size:20 final size:20
Alignment explanation
Indices: 10806476--10806515 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10806466 ATTGGGCCTT
10806476 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
10806496 GCCCATTTCAATACAGTTGG
1 GCCCATTTCAACACAGTTGG
10806516 CCTATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:10809314 original size:22 final size:22
Alignment explanation
Indices: 10809289--10809330 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10809279 CAGCACATCG
10809289 GTGCTCTCTAATTAGCACTTAT
1 GTGCTCTCTAATTAGCACTTAT
* *
10809311 GTGCTCTTTGATTAGCACTT
1 GTGCTCTCTAATTAGCACTT
10809331 TTTTACTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (22 bp):
GTGCTCTCTAATTAGCACTTAT
Found at i:10809339 original size:22 final size:22
Alignment explanation
Indices: 10809299--10809386 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 22
10809289 GTGCTCTCTA
* *
10809299 ATTAGCACTTATGTGCTCTTTG
1 ATTAGCACTTTTGTACTCTTTG
* *
10809321 ATTAGCACTTTTTTACTCTCT-
1 ATTAGCACTTTTGTACTCTTTG
* *
10809342 CTTCAGCA-TTTTGGTACTCTGTG
1 ATT-AGCACTTTT-GTACTCTTTG
* * *
10809365 ATTAGCATTTTTTTGCTCTTTG
1 ATTAGCACTTTTGTACTCTTTG
10809387 TTTGCCCTTC
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
21 6 0.12
22 39 0.76
23 6 0.12
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.50
Consensus pattern (22 bp):
ATTAGCACTTTTGTACTCTTTG
Found at i:10812808 original size:25 final size:25
Alignment explanation
Indices: 10812690--10812828 Score: 89
Period size: 25 Copynumber: 5.5 Consensus size: 25
10812680 AAACCAAACC
* * * *
10812690 AAGCTTTTATGGCGAATTGTTTGGA
1 AAGCCTTTGTGGCGATTTATTTGGA
* *
10812715 AAGCCTTTATGGCGATTTATTTGGGG
1 AAGCCTTTGTGGCGATTTATTT-GGA
* ** * * *
10812741 AAGCCTTTGTGGTGGGTCACTTGTA
1 AAGCCTTTGTGGCGATTTATTTGGA
* * *
10812766 AAGCCTTTTTCGCGATTTATTTGGG
1 AAGCCTTTGTGGCGATTTATTTGGA
* * *
10812791 AAGCCTTTGTGGCAATTTATCTGTA
1 AAGCCTTTGTGGCGATTTATTTGGA
* *
10812816 AAGTCTATGTGGC
1 AAGCCTTTGTGGC
10812829 AGGTTACCTG
Statistics
Matches: 84, Mismatches: 29, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
25 66 0.79
26 18 0.21
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (25 bp):
AAGCCTTTGTGGCGATTTATTTGGA
Found at i:10812829 original size:25 final size:25
Alignment explanation
Indices: 10812798--10812853 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
10812788 GGGAAGCCTT
* *
10812798 TGTGGCAATTTATCTGT-AAAGTCTA
1 TGTGGCAAGTTACCTGTAAAAG-CTA
*
10812823 TGTGGCAGGTTACCTGTAAAAGCTA
1 TGTGGCAAGTTACCTGTAAAAGCTA
10812848 TGTGGC
1 TGTGGC
10812854 GAAATGTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (25 bp):
TGTGGCAAGTTACCTGTAAAAGCTA
Found at i:10814970 original size:24 final size:24
Alignment explanation
Indices: 10814925--10814971 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10814915 TATATATACC
10814925 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
10814949 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
10814972 CCATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:10815360 original size:6 final size:6
Alignment explanation
Indices: 10815344--10815427 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
10815334 GTCTTTCTCC
* * *
10815344 TTTTC- TTTTCT TTTTC- TTTCCT TTTT-T TTCCTTCT GTTTCGCT TGTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TT--TTCT -TTT-TCT TTTTCT
*
10815393 TTCTT-T CTTTTCT ATTTCT TTTTCT TTTTCT TTTT
1 TT-TTCT -TTTTCT TTTTCT TTTTCT TTTTCT TTTT
10815428 TTTATTATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
5 12 0.20
6 34 0.56
7 10 0.16
8 3 0.05
9 2 0.03
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:10815360 original size:11 final size:11
Alignment explanation
Indices: 10815344--10815430 Score: 59
Period size: 11 Copynumber: 7.3 Consensus size: 11
10815334 GTCTTTCTCC
10815344 TTTTCTTTTCT
1 TTTTCTTTTCT
*
10815355 TTTTCTTTCCT
1 TTTTCTTTTCT
*
10815366 TTTTTTTCCTTCT
1 TTTTCTT--TTCT
*
10815379 GTTTCGCTTGTTCTT
1 -TTT-TCTT-TTC-T
10815394 TCTTTCTTTTCT
1 T-TTTCTTTTCT
*
10815406 ATTTCTTTTTCT
1 TTTTC-TTTTCT
10815418 TTTTCTTTT-T
1 TTTTCTTTTCT
10815428 TTT
1 TTT
10815431 ATTATAATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
10 4 0.07
11 24 0.40
12 11 0.18
13 6 0.10
14 10 0.17
15 5 0.08
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:10815367 original size:21 final size:21
Alignment explanation
Indices: 10815341--10815425 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 21
10815331 TTGGTCTTTC
10815341 TCCTTTTCTTTTCTTTTTCTT
1 TCCTTTTCTTTTCTTTTTCTT
* * *
10815362 TCCTTTT-TTTTCCTTCTGTT
1 TCCTTTTCTTTTCTTTTTCTT
10815382 TCGCTTGTTC-TTTC--TTTCTT
1 TC-CTT-TTCTTTTCTTTTTCTT
*
10815402 TTCTATTTCTTTTTCTTTTTCTT
1 TCCT-TTTC-TTTTCTTTTTCTT
10815425 T
1 T
10815426 TTTTTATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
19 5 0.10
20 18 0.36
21 14 0.28
22 6 0.12
23 7 0.14
ACGTcount: A:0.01, C:0.22, G:0.04, T:0.73
Consensus pattern (21 bp):
TCCTTTTCTTTTCTTTTTCTT
Found at i:10815452 original size:17 final size:17
Alignment explanation
Indices: 10815430--10815519 Score: 78
Period size: 17 Copynumber: 5.2 Consensus size: 17
10815420 TTCTTTTTTT
10815430 TATTATAATATAATATA
1 TATTATAATATAATATA
10815447 TATTATAATATAATATA
1 TATTATAATATAATATA
* *
10815464 TA-TATACT-TAAACATTAA
1 TATTATAATAT-AATA-T-A
* *
10815482 GATT-TAATATTATATAA
1 TATTATAATATAATAT-A
10815499 TATTATAATATATATATA
1 TATTATAATATA-ATATA
10815517 TAT
1 TAT
10815520 ACTTTAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
15 1 0.02
16 8 0.14
17 26 0.45
18 17 0.29
19 6 0.10
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (17 bp):
TATTATAATATAATATA
Found at i:10815541 original size:51 final size:50
Alignment explanation
Indices: 10815426--10815543 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 50
10815416 CTTTTTCTTT
*
10815426 TTTTTATTATAATATAATATATATTATAATATAATATATATATACTTAAA
1 TTTTTATAATAATATAATATATATTATAATATAATATATATATACTTAAA
** * * * *
10815476 CATTAAGATTTAATATTATATAATATTATAATAT-ATATATATATACTTTAAA
1 TTTTTATA-ATAATATAATAT-ATATTATAATATAATATATATATAC-TTAAA
10815528 TTTTTATAATAATATA
1 TTTTTATAATAATATA
10815544 CACTTATATC
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
50 3 0.06
51 28 0.54
52 21 0.40
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (50 bp):
TTTTTATAATAATATAATATATATTATAATATAATATATATATACTTAAA
Found at i:10822777 original size:24 final size:25
Alignment explanation
Indices: 10822750--10822799 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
10822740 GCTGAAGCAT
*
10822750 ATAATCA-TGTGGCTGGTATTCTGA
1 ATAATCACTGAGGCTGGTATTCTGA
*
10822774 ATAATTATCTGAGGCTGGTATTCTGA
1 ATAATCA-CTGAGGCTGGTATTCTGA
10822800 TTGTCTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
26 16 0.73
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (25 bp):
ATAATCACTGAGGCTGGTATTCTGA
Found at i:10822823 original size:40 final size:40
Alignment explanation
Indices: 10822768--10822853 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
10822758 GTGGCTGGTA
*
10822768 TTCTGAATAATTATCTGAGGCTGGTATTCTGATTGTCTAC
1 TTCTGAACAATTATCTGAGGCTGGTATTCTGATTGTCTAC
*
10822808 TTCTGAACAATTATCTGAGGCTGGTATTCTGATTGTGTAC
1 TTCTGAACAATTATCTGAGGCTGGTATTCTGATTGTCTAC
*
10822848 ATCTGA
1 TTCTGA
10822854 CTGCATACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (40 bp):
TTCTGAACAATTATCTGAGGCTGGTATTCTGATTGTCTAC
Done.